miRNA display CGI


Results 1 - 20 of 24 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
12990 3' -52.4 NC_003387.1 + 33027 0.66 0.863018
Target:  5'- uGCAGUUCAaaccgaUGUacgAGGGC-ACCGUgcCGc -3'
miRNA:   3'- -CGUCAAGU------ACG---UCCCGcUGGCAauGC- -5'
12990 3' -52.4 NC_003387.1 + 28525 0.66 0.861349
Target:  5'- gGCAGUggaacaccaagcCcgGCGacaauuGGGCGACCGagGCGg -3'
miRNA:   3'- -CGUCAa-----------GuaCGU------CCCGCUGGCaaUGC- -5'
12990 3' -52.4 NC_003387.1 + 34046 0.66 0.854578
Target:  5'- -uGGUcggCGUGUGGGGCGGCCuaaGCGc -3'
miRNA:   3'- cgUCAa--GUACGUCCCGCUGGcaaUGC- -5'
12990 3' -52.4 NC_003387.1 + 21226 0.66 0.854578
Target:  5'- uGCGGgc---GCAGGGCGAuCCGgu-CGg -3'
miRNA:   3'- -CGUCaaguaCGUCCCGCU-GGCaauGC- -5'
12990 3' -52.4 NC_003387.1 + 37498 0.66 0.854578
Target:  5'- cGUcaUUCAcUGCAGGGaCGACCGgaUUACc -3'
miRNA:   3'- -CGucAAGU-ACGUCCC-GCUGGC--AAUGc -5'
12990 3' -52.4 NC_003387.1 + 30755 0.66 0.854578
Target:  5'- gGCAGcacCGUGuCGGGcGUGACCGUgUACu -3'
miRNA:   3'- -CGUCaa-GUAC-GUCC-CGCUGGCA-AUGc -5'
12990 3' -52.4 NC_003387.1 + 43774 0.66 0.845895
Target:  5'- aGCAccUUCAUGC-GGGCG-CCGUgcaucGCGg -3'
miRNA:   3'- -CGUc-AAGUACGuCCCGCuGGCAa----UGC- -5'
12990 3' -52.4 NC_003387.1 + 25289 0.67 0.789235
Target:  5'- gGCAG-UCAgcCAGGGCGACguCGgcGCGg -3'
miRNA:   3'- -CGUCaAGUacGUCCCGCUG--GCaaUGC- -5'
12990 3' -52.4 NC_003387.1 + 2071 0.68 0.768867
Target:  5'- cGCcauGUUCGUGUgagagGGGGgGGCCGUgACu -3'
miRNA:   3'- -CGu--CAAGUACG-----UCCCgCUGGCAaUGc -5'
12990 3' -52.4 NC_003387.1 + 23960 0.68 0.757408
Target:  5'- uGCAGcaCGUGCGcagcgccGGGCGGCUGguugUGCa -3'
miRNA:   3'- -CGUCaaGUACGU-------CCCGCUGGCa---AUGc -5'
12990 3' -52.4 NC_003387.1 + 52587 0.68 0.747911
Target:  5'- gGCGGcgCGgaucGCgAGGGCGACCGcaucgagGCGg -3'
miRNA:   3'- -CGUCaaGUa---CG-UCCCGCUGGCaa-----UGC- -5'
12990 3' -52.4 NC_003387.1 + 27949 0.68 0.737244
Target:  5'- aGCGGUUCcgGCucguGGCGAUCGaccGCGa -3'
miRNA:   3'- -CGUCAAGuaCGuc--CCGCUGGCaa-UGC- -5'
12990 3' -52.4 NC_003387.1 + 23667 0.68 0.737244
Target:  5'- cGCAGUUUAUgacGCGGcucaaGGCGGCCGgaUACa -3'
miRNA:   3'- -CGUCAAGUA---CGUC-----CCGCUGGCa-AUGc -5'
12990 3' -52.4 NC_003387.1 + 2591 0.69 0.704628
Target:  5'- gGCAGUUC-UGCGuaacGGCGAUCGUgaccagGCGc -3'
miRNA:   3'- -CGUCAAGuACGUc---CCGCUGGCAa-----UGC- -5'
12990 3' -52.4 NC_003387.1 + 25470 0.7 0.648951
Target:  5'- cGCGGcUCAUGCGgcgcauccugucGGGCGACCugcaGCGg -3'
miRNA:   3'- -CGUCaAGUACGU------------CCCGCUGGcaa-UGC- -5'
12990 3' -52.4 NC_003387.1 + 51698 0.7 0.615258
Target:  5'- uGCAcGUUCAagaugUGCGGGGCGAUCuuGUcGCGc -3'
miRNA:   3'- -CGU-CAAGU-----ACGUCCCGCUGG--CAaUGC- -5'
12990 3' -52.4 NC_003387.1 + 49855 0.72 0.494722
Target:  5'- aGCAGgaUCA-GCGGGGCGACCucaccgACGa -3'
miRNA:   3'- -CGUCa-AGUaCGUCCCGCUGGcaa---UGC- -5'
12990 3' -52.4 NC_003387.1 + 1188 0.73 0.48424
Target:  5'- gGCGGgcgCAgggGCaAGGGUGGCCGUcgACGg -3'
miRNA:   3'- -CGUCaa-GUa--CG-UCCCGCUGGCAa-UGC- -5'
12990 3' -52.4 NC_003387.1 + 49172 0.73 0.48424
Target:  5'- cGCAGgcggUCGcGCAGgcGGCGGCCGUcgACGu -3'
miRNA:   3'- -CGUCa---AGUaCGUC--CCGCUGGCAa-UGC- -5'
12990 3' -52.4 NC_003387.1 + 25732 0.73 0.443438
Target:  5'- cCAGcUCGUGCAGGGCGACauucuCGg -3'
miRNA:   3'- cGUCaAGUACGUCCCGCUGgcaauGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.